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15 results for “Methylobacterium”
X-ray diffraction images used for refinement of cytochrome cL from Methylobacterium extorquens.
<p>X-ray diffraction images for cytchrome cL from <em>M. extorquens</em> extending to 1.6 Angstroms resolution that were collected at ID14-2 at the ESRF (Grenoble) in April 2001. This dataset was used for high resolution refinement of the structure. </p>
Atomic resolution X-ray diffraction images for methanol dehydrogenase from Methylobacterium extorquens.
<p>Atomic resolution X-ray diffraction images for methanol dehydrogenase from <em>Methylobacterium extorquens</em> collected at ESRF (Grenoble, France) using beamline ID29 in May 2002 with an ADSC detector. The diffraction resolution for the first pass is approximately 1.1 - 1.2 Angstroms and a second pass was collected to recoup the reflections that were overloaded in the first pass. More details of the data collection are in the included scanned notes and log files. </p>
X-ray diffraction images for cytochrome cL from the methylotrophic bacterium Methylobacterium extorquens.
<p>X-ray diffraction images for cytochrome c<sub>L</sub> from <em>Methylobacterium extorquens</em> collected at the ESRF beamline ID14-2 using an ADSC detector in Feb 2001. The diffraction data extend to around 2.0 Angstroms resolution and were used for the initial structure determination of this protein. Further details in the log files and the notes. </p>
Microscopy images and datasets of Sphingomonas and Methylobacterium on Arabidopsis leaves
<p>This repository contains the supplemental material and raw data to analyse the population density at the CFU-level and single cell-resolution, and spatial distribution of bacterial communities composed of <em>Methylobacterium</em> and/or <em>Sphingomonas</em> species on <em>Arabidopsis thaliana</em>.</p> <p>Identities of each community can be found in metadata.csv and comm_id.csv. Data analysis can be found in the GitHub repository associated to the manuscript: <a href="https://github.com/relab-fuberlin/schlechter_phyllosphere_spatial_distribution" target="_blank" rel="noopener">https://github.com/relab-fuberlin/schlechter_phyllosphere_spatial_distribution</a>.</p> <p>File bacimg.tar.gz contains the pre-processed images of near-isogenic controls, two- and three-species communities (C, S2 and S3).</p> <p>Abbreviations:</p> <p>Fluorescence channels:</p> <ul> <li>C0: Channel 0 (Red fluorescence)</li> <li>C1: Channel 1 (Yellow/Cyan fluorescence)</li> <li>C2: Channel 2 (Cyan fluorescence)</li> </ul> <p>Independent experiments:</p> <ul> <li>e1: Experiment #1</li> <li>e2: Experiment #2</li> </ul> <p>Days post-inoculation:</p> <ul> <li>7d: 7 days-post-inoculation</li> <li>14d: 14 days-post-inoculation</li> </ul> <p>SynCom ID (SynID):</p> <ul> <li>c: near-isogenic controls (C)</li> <li>syn2: two-species communities (S2)</li> <li>syn3: three-species communities (S3)</li> </ul> <p>Community ID (ComID):</p> <ul> <li>com01-com15: Strain composition of each community (see comm_id.csv)</li> </ul>
Data from: Sign epistasis limits evolutionary trade-offs at the confluence of single- and multi-carbon metabolism in Methylobacterium extorquens AM1
Adaptation of one set of traits is often accompanied by attenuation of traits important in other selective environments, leading to fitness trade-offs. The mechanisms that either promote or prevent the emergence of trade-offs remain largely unknown, and are difficult to discern in most systems. Here, we investigate the basis of trade-offs that emerged during experimental evolution of Methylobacterium extorquens AM1 to distinct growth substrates. After 1500 generations of adaptation to a multi-carbon substrate, succinate (S), many lineages had lost the ability to use one-carbon compounds such as methanol (M), generating a mixture of M+ and M− evolved phenotypes. We show that trade-offs in M− strains consistently arise via antagonistic pleiotropy through recurrent selection for loss-of-function mutations to ftfL (formate-tetrahydrofolate ligase), which improved growth on S while simultaneously eliminating growth on M. But if loss of FtfL was beneficial, why were M trade-offs not found in all populations? We discovered that eliminating FtfL was not universally beneficial on S, as it was neutral or even deleterious in certain evolved lineages that remained M+. This suggests that sign epistasis with earlier arising mutations prevented the emergence of mutations that drove trade-offs through antagonistic pleiotropy, limiting the evolution of metabolic specialists in some populations.
iGEM Leiden 2023 - Methylobacterium extorquens cultivation
<p>Raw data of effect of culture conditions for <em>Methylobacterium extorquens</em> on PHA production. </p>
Data from: Sign epistasis limits evolutionary trade-offs at the confluence of single- and multi-carbon metabolism in Methylobacterium extorquens AM1
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Ethylmalonyl-CoA mutase Operates as a Metabolic Control Point in Methylobacterium extorquens AM1
GEO Series GSE63115. Methylorubrum extorquens AM1. 12 samples. Type: Expression profiling by high throughput sequencing.
Transition from succinate to methanol growth in Methylobacterium Extorquens AM1
GEO Series GSE22031. Methylorubrum extorquens AM1. 24 samples. Type: Expression profiling by array.
Ethylamine versus succinate cells of Methylobacterium extorquens
GEO Series GSE20365. Methylorubrum extorquens AM1; Methylorubrum extorquens. 4 samples. Type: Expression profiling by array.
Aromatic acid metabolism in Methylobacterium extorquens reveals interplay between methylotrophic and heterotrophic pathways
GEO Series GSE293907. Methylorubrum extorquens. 12 samples. Type: Expression profiling by high throughput sequencing.
Contrasting in vitro and in vivo methanol oxidation activities of lanthanide-dependent alcohol dehydrogenases XoxF1 and ExaF from Methylobacterium extorquens AM1
GEO Series GSE125593. Methylorubrum extorquens AM1. 5 samples. Type: Expression profiling by high throughput sequencing.
Differential gene expression in Xylella fastidiosa 9a5c during co-cultivation with the endophytic bacteria Methylobacterium mesophilicum SR1.6/6
GEO Series GSE56901. Xylella fastidiosa. 4 samples. Type: Expression profiling by array.
Formaldehyde stress response in Methylobacterium extorquens AM1
GEO Series GSE15631. Methylorubrum extorquens AM1. 18 samples. Type: Expression profiling by array.
Engineered Methylobacterium methanol
GEO Series GSE34662. Methylorubrum extorquens AM1. 1 samples. Type: Expression profiling by array.
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
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DANDI Archive for NWB datasets
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International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.